bioseq: A Toolbox for Manipulating Biological Sequences in R

The purpose of bioseq is to provide a collection of classes and functions for biological sequence manipulation in R. The package provides simple S3 classes for sequences that are suitable for inclusion in a data frame and that can be analysed using the dplyr grammar and other tidyverse tools.

Installation

You can install the development version of bioseq from GitHub with:

# remotes::install_github("fkeck/bioseq")
install.packages("bioseq", repos = c('https://fkeck.r-universe.dev', 'https://cloud.r-project.org'))

Tutorials

There are two vignettes available to get started with the package:

• Introduction to the bioseq package
• Cleaning and exploring NCBI data with the bioseq package

Citation

If you use bioseq please cite Keck F. (2020) Handling biological sequences in R with the bioseq package. Methods in Ecology and Evolution. doi:10.1111/2041-210X.13490